Most of FS/recon-all will run using the T1 only. The T2 can be used to refine the pial surface (-T2  T2file.mgz -T2pial)


On 9/18/18 4:56 AM, limiyu wrote:

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Dear developers
        
        I have a question on how could I segment two registered MRI images and get only one segmentation result, by command recon-all ? 

        In details, I have two MRI images which are T1-weighted and T2-weighted. They are the photos of one brain. How could I input both of them into Freesufer and output one segmentation result, which takes both of the input into consideration.
        I know that command "recon-all -all" could output the segmentation but do not know what to do when there are multiple inputs.

Looking forward to your reply 
Thank you
Mingyuan Liu



 



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